Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 51
Found at i:8831154 original size:18 final size:17
Alignment explanation
Indices: 8831123--8831167 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
8831113 ATTAATGGAT
8831123 TAAAAAAATAAAAAAGG
1 TAAAAAAATAAAAAAGG
*
8831140 TAAAAGAAATTAAAAAGG
1 TAAAA-AAATAAAAAAGG
8831158 -AATAAAAATA
1 TAA-AAAAATA
8831168 TATGTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (17 bp):
TAAAAAAATAAAAAAGG
Found at i:8831241 original size:30 final size:31
Alignment explanation
Indices: 8831189--8831248 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
8831179 AAAGTATATT
* *
8831189 TACTAAACAAATAAAAATAATAAATATATAA
1 TACTAAAAAAATAAAAATAATAAAGATATAA
8831220 TACTAAAAACAAT-AAAA-AATAAAGATATA
1 TACTAAAAA-AATAAAAATAATAAAGATATA
8831249 CATGATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 12 0.46
32 3 0.12
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (31 bp):
TACTAAAAAAATAAAAATAATAAAGATATAA
Found at i:8831248 original size:32 final size:29
Alignment explanation
Indices: 8831177--8831248 Score: 74
Period size: 32 Copynumber: 2.4 Consensus size: 29
8831167 ATATGTACAT
* *
8831177 ATAAAG-TATATTTACTAAACAAATAAAA
1 ATAAAGATATATATACTAAAAAAATAAAA
*
8831205 ATAATAAATATATAATACTAAAAACAATAAAAA
1 ATAA-AGATATAT-ATACTAAAAA-AAT-AAAA
8831238 ATAAAGATATA
1 ATAAAGATATA
8831249 CATGATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.11
29 1 0.03
30 5 0.14
31 8 0.23
32 9 0.26
33 8 0.23
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (29 bp):
ATAAAGATATATATACTAAAAAAATAAAA
Found at i:8831313 original size:42 final size:44
Alignment explanation
Indices: 8831267--8831356 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 44
8831257 TAAGAAAAAA
* * *
8831267 ATAATATAGAAAAAAATAAAATAA-AGT-A-AAAATATAATATAT
1 ATAATAAAGAAAAAAAAAAAAGAATAGTAAGAAAATAT-ATATAT
* *
8831309 ATAATAAATAAAAAAAAAAAAGAATATTAAGAAAATATATATAT
1 ATAATAAAGAAAAAAAAAAAAGAATAGTAAGAAAATATATATAT
8831353 ATAA
1 ATAA
8831357 ACGTATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 20 0.50
43 2 0.05
44 11 0.28
45 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (44 bp):
ATAATAAAGAAAAAAAAAAAAGAATAGTAAGAAAATATATATAT
Found at i:8831426 original size:2 final size:2
Alignment explanation
Indices: 8831421--8831453 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8831411 TTAATGCATC
*
8831421 TA TA TA TA TA TA TA TA TA TA -A GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8831454 AAATAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:8831448 original size:15 final size:14
Alignment explanation
Indices: 8831421--8831472 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
8831411 TTAATGCATC
*
8831421 TATATATATATATA
1 TATATAAATATATA
8831435 TATATAAGATATATA
1 TATATAA-ATATATA
8831450 TATA-AAATA-ATA
1 TATATAAATATATA
8831462 TAATATAAATA
1 T-ATATAAATA
8831473 AAAAGGAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 13 0.38
15 11 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:8831468 original size:21 final size:24
Alignment explanation
Indices: 8831421--8831464 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8831411 TTAATGCATC
*
8831421 TATATATAT-ATATATATATAAGA
1 TATATATATAAAATATATATAAGA
8831444 TATATATATAAAATA-ATATAA
1 TATATATATAAAATATATATAA
8831465 TATAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TATATATATAAAATATATATAAGA
Found at i:8832973 original size:32 final size:30
Alignment explanation
Indices: 8832907--8832974 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 30
8832897 GCATGGTATC
* *
8832907 AGTTGAAATCGTGGATATCCTCCGTCGTGG
1 AGTTGAAATCGCGGATATCCTCCGTCGTGA
* *
8832937 AGTTGAAATCGCGGATGGCTCCTTCGTCGTGA
1 AGTTGAAATCGCGGAT--ATCCTCCGTCGTGA
8832969 AGTTGA
1 AGTTGA
8832975 GCCTTGACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 15 0.47
32 17 0.53
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (30 bp):
AGTTGAAATCGCGGATATCCTCCGTCGTGA
Found at i:8833674 original size:67 final size:65
Alignment explanation
Indices: 8833550--8833733 Score: 226
Period size: 65 Copynumber: 2.8 Consensus size: 65
8833540 AAGATATATG
* * * * *
8833550 TTGTTTCATGAAAAACGGTCTCAAGGGAAGAAAAATTTTGTTTTAAGG-GAAATAAATTTAAAGA
1 TTGTTTCAAGAGAAACTGTCTCAAGGG-AGAAAAAATTTGTTTT-AGGAGAAATAAATTCAAAGA
8833614 TTT
64 -TT
8833617 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGAGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGAGAAATAAATTCAAAGAT
8833682 T
65 T
* * ** * *
8833683 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGAGAAA
8833734 CTGTCTCAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 44 0.42
66 6 0.06
67 31 0.30
68 23 0.22
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGAGAAATAAATTCAAAGATT
Found at i:8833734 original size:36 final size:36
Alignment explanation
Indices: 8833682--8834073 Score: 163
Period size: 36 Copynumber: 11.7 Consensus size: 36
8833672 ATTCAAAGAT
*
8833682 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
8833718 TTTGTTTCAAGAGAAACTGTCTC-A-AGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** *
8833752 CTTAGTTCCAAAAGAAACTGTCTCAAG-G-GA-TAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *** * * *
8833786 TATGTTTTAAATAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
8833815 TTTG-TTCAAGGGAAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGG-AAACTGTCTCAAGAGAGACAAAA
*
8833851 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
8833887 TTTATTTCAAGGGAAA-TGTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
8833914 TTATGTTTCAAGAGAAAC--TCTCAAGGGAGGCAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
8833949 TTTTTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * * *
8833985 --CATTTC-AGGGAAA-TGTTTTC-A-A-TGTC----
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* * *
8834011 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
8834047 TTTTGTTTCAAGGGAAACTATCTCAAG
1 -TTTGTTTCAAGGGAAACTGTCTCAAG
8834074 CAAGATAAAA
Statistics
Matches: 259, Mismatches: 57, Indels: 79
0.66 0.14 0.20
Matches are distributed among these distances:
27 5 0.02
28 23 0.09
29 19 0.07
30 6 0.02
31 1 0.00
32 5 0.02
33 24 0.09
34 33 0.13
35 31 0.12
36 81 0.31
37 31 0.12
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:8833775 original size:35 final size:34
Alignment explanation
Indices: 8833694--8833778 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 34
8833684 TGTTTCAAGG
* * * *
8833694 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTC-A-AGAGACAAAATTAGTTCCAAAA
8833730 GAAACTGTCTCAAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGACAAAA-TTAGTTCCAAAA
8833765 GAAACTGTCTCAAG
1 GAAACTGTCTCAAG
8833779 GGATAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 9 0.20
35 24 0.55
36 11 0.25
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (34 bp):
GAAACTGTCTCAAGAGACAAAATTAGTTCCAAAA
Found at i:8833792 original size:133 final size:136
Alignment explanation
Indices: 8833628--8833879 Score: 363
Period size: 133 Copynumber: 1.9 Consensus size: 136
8833618 GTGTTTCAAG
* *
8833628 AGAAACTGTCTCAAGGGAGAAAAAATTTGTTTTAGGAGAAATA-A-ATTCAAAGATTTTGTTTCA
1 AGAAACTGTCTCAAGGGAGAAAAAATATGTTTTA-AAGAAA-ACATATTCAAAGATTTTG-TTCA
*
8833691 AGGG-AAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGACAAAACTT
63 AGGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGACAAAACTT
8833755 AGTTCCAAA
128 AGTTCCAAA
* * *
8833764 AGAAACTGTCTCAA-GG-G-ATAAATATGTTTTAAATAAAACATATTCAAATATTTTGTTCAAGG
1 AGAAACTGTCTCAAGGGAGAAAAAATATGTTTTAAAGAAAACATATTCAAAGATTTTGTTCAAGG
* *
8833826 GAAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
66 GAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
8833880 GACGAAATTT
Statistics
Matches: 105, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
131 1 0.01
132 13 0.12
133 74 0.70
134 1 0.01
135 2 0.02
136 14 0.13
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (136 bp):
AGAAACTGTCTCAAGGGAGAAAAAATATGTTTTAAAGAAAACATATTCAAAGATTTTGTTCAAGG
GAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGACAAAACTTAGT
TCCAAA
Found at i:8833936 original size:98 final size:97
Alignment explanation
Indices: 8833833--8834073 Score: 360
Period size: 98 Copynumber: 2.5 Consensus size: 97
8833823 AGGGAAAATT
* * **
8833833 GTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAG
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAA-ACATTTC-AG
*
8833898 GGAAATG-TTTCAATGTTTATGTTTCAAGAGAAAC
63 GGAAATGTTTTCAATGTCTATGTTTCAAGAGAAAC
* *
8833932 -TCTCAAGGGAGGCAAAATTTTTTTCAAGGGAAACTATCTCAAGAGAGACAAAACATTTCAGGGA
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACATTTCAGGGA
8833996 AATGTTTTCAATGTCTATGTTTCAAGAGAAAC
66 AATGTTTTCAATGTCTATGTTTCAAGAGAAAC
8834028 TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAG
1 -GTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAG
8834074 CAAGATAAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
95 9 0.07
96 31 0.24
97 3 0.02
98 61 0.47
99 25 0.19
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (97 bp):
GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACATTTCAGGGA
AATGTTTTCAATGTCTATGTTTCAAGAGAAAC
Found at i:8834084 original size:37 final size:37
Alignment explanation
Indices: 8834013--8834084 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
8834003 TCAATGTCTA
* **
8834013 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCAAGACAAAATTT
* *
8834050 TGTTTCAAGGGAAACTATCTCAAGCAAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCAAGACAAAAT
8834085 CTTCTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCAAGACAAAATTT
Found at i:8835504 original size:69 final size:69
Alignment explanation
Indices: 8835389--8835525 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
8835379 TGCTCCTCTG
* *
8835389 TGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTAATCTAGAAATGATTGTGCTTGATCAATCT
1 TGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTAATCTAGAAATGATTATGCTTGATCAATCT
8835454 CATT
66 CATT
* * * *
8835458 TGATGCTCTATGATCTTTGAGTGAAGTGGTTCAGTGAT-TCGTAAATGATTATGCTTGATCAATC
1 TGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTAATCTAG-AAATGATTATGCTTGATCAATC
8835522 TCAT
65 TCAT
8835526 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 2 0.03
69 59 0.97
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTAATCTAGAAATGATTATGCTTGATCAATCT
CATT
Found at i:8835623 original size:27 final size:27
Alignment explanation
Indices: 8835597--8835649 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
8835587 ATTTTCTTTA
8835597 AGTTTC-CTTTG-TGTTTTTCTCTTTTT
1 AGTTTCTCTTTGCT-TTTTTCTCTTTTT
*
8835623 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 AGTTTCTCTTTGCTTTTTTCTCTTTTT
8835650 TTTTGTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 18 0.75
28 1 0.04
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.72
Consensus pattern (27 bp):
AGTTTCTCTTTGCTTTTTTCTCTTTTT
Found at i:8835627 original size:13 final size:12
Alignment explanation
Indices: 8835610--8835653 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
8835600 TTCCTTTGTG
8835610 TTTTTCTCTTTT
1 TTTTTCTCTTTT
8835622 TATTTTCTCTTTGCT
1 T-TTTTCTCTTT--T
8835637 TTTTTCTCTTTT
1 TTTTTCTCTTTT
8835649 TTTTT
1 TTTTT
8835654 GTTCTGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.24
13 10 0.34
14 10 0.34
15 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTCTCTTTT
Found at i:8847250 original size:18 final size:17
Alignment explanation
Indices: 8847228--8847277 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
8847218 ATATTAATGG
8847228 AGTAAAAAAAATAAAAA
1 AGTAAAAAAAATAAAAA
*
8847245 AGGTAAAAAAAAATTAAAA
1 A-GT-AAAAAAAATAAAAA
*
8847264 AGTAATAAAAATAA
1 AGTAAAAAAAATAA
8847278 TGTGTACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 14 0.50
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AGTAAAAAAAATAAAAA
Found at i:8847403 original size:15 final size:13
Alignment explanation
Indices: 8847375--8847399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8847365 CATGATATTA
8847375 AGAAAAAAATAAT
1 AGAAAAAAATAAT
8847388 AGAAAAAAATAA
1 AGAAAAAAATAA
8847400 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:8847403 original size:18 final size:18
Alignment explanation
Indices: 8847380--8847436 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
8847370 TATTAAGAAA
8847380 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
8847398 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
8847414 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
8847433 AAAA
1 AAAA
8847437 ACAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:8847550 original size:2 final size:2
Alignment explanation
Indices: 8847538--8847622 Score: 129
Period size: 2 Copynumber: 43.0 Consensus size: 2
8847528 TTAATACATC
*
8847538 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8847580 TA TA TA TA TA TA TA TA TA TA TGA TA TA -A GA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
8847621 TA
1 TA
8847623 AAAAAAGGAA
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.03
2 73 0.95
3 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8852839 original size:13 final size:14
Alignment explanation
Indices: 8852812--8852842 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8852802 TTGGACCTAA
8852812 AAAATAATCAAAAT
1 AAAATAATCAAAAT
8852826 AAAATAAT-AAAAT
1 AAAATAATCAAAAT
8852839 AAAA
1 AAAA
8852843 CAATGGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAATCAAAAT
Found at i:8852901 original size:2 final size:2
Alignment explanation
Indices: 8852894--8852926 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8852884 TTAATATTAT
8852894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8852927 GTTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8852948 original size:24 final size:24
Alignment explanation
Indices: 8852921--8852966 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
8852911 ATATATATAT
*
8852921 ATATATGTTTTAAAAACTATATGC
1 ATATATGTTTTAAAAACCATATGC
* * *
8852945 ATATTTTTTTTCAAAACCATAT
1 ATATATGTTTTAAAAACCATAT
8852967 ATTATAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATATGTTTTAAAAACCATATGC
Found at i:8853023 original size:24 final size:23
Alignment explanation
Indices: 8852996--8853074 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
8852986 TATATATATA
8852996 TATATATATATATAATTTC--AA-
1 TATAT-TATATATAATTTCAAAAT
8853017 -A-ATTATATAT-ATTTCAAAATT
1 TATATTATATATAATTTCAAAA-T
* *
8853038 GTATATAATATATACTTTCAAAACT
1 -TATATTATATATAATTTCAAAA-T
8853063 TATATTATATAT
1 TATATTATATAT
8853075 TTTAAATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
17 5 0.11
18 7 0.15
19 4 0.09
20 1 0.02
23 1 0.02
24 19 0.41
25 9 0.20
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (23 bp):
TATATTATATATAATTTCAAAAT
Found at i:8853028 original size:2 final size:2
Alignment explanation
Indices: 8852979--8853009 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8852969 TATAATTTCA
8852979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8853010 ATTTCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8853032 original size:17 final size:17
Alignment explanation
Indices: 8853002--8853044 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
8852992 TATATATATA
8853002 TATATATAATTTCAAAAT
1 TATATAT-ATTTCAAAAT
8853020 TATATATATTTCAAAAT
1 TATATATATTTCAAAAT
*
8853037 TGTATATA
1 TATATATA
8853045 ATATATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATATATTTCAAAAT
Found at i:8853048 original size:22 final size:23
Alignment explanation
Indices: 8853021--8853149 Score: 77
Period size: 24 Copynumber: 5.4 Consensus size: 23
8853011 TTTCAAAATT
*
8853021 ATATATATTTCAAAATTGTATATA
1 ATATATATTTCAAAACT-TATATA
*
8853045 ATATATACTTTCAAAACTTATATT
1 ATATATA-TTTCAAAACTTATATA
* *
8853069 ATATAT-TTTAAATATACTT-TAAAA
1 ATATATATTTCAA-A-ACTTAT-ATA
* *
8853093 ACATATATGTTACTAAAA-TTATATT
1 ATATATAT-TT-C-AAAACTTATATA
* *
8853118 ATATATATTTCAAAA-GTATATG
1 ATATATATTTCAAAACTTATATA
*
8853140 ATTTATATTT
1 ATATATATTT
8853150 TTTCTAAAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
22 23 0.28
23 3 0.04
24 30 0.36
25 20 0.24
26 4 0.05
27 1 0.01
28 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (23 bp):
ATATATATTTCAAAACTTATATA
Found at i:8868476 original size:16 final size:16
Alignment explanation
Indices: 8868457--8868498 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
8868447 ACACTTTATT
8868457 CTTCTTCTTCTTTTCC
1 CTTCTTCTTCTTTTCC
*
8868473 CTTCTTTTTCTTTTCC
1 CTTCTTCTTCTTTTCC
8868489 CTTCTTCTTC
1 CTTCTTCTTC
8868499 CTCCTCCCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTCTTCTTCTTTTCC
Found at i:8869737 original size:18 final size:18
Alignment explanation
Indices: 8869714--8869788 Score: 105
Period size: 18 Copynumber: 3.9 Consensus size: 18
8869704 AGGGTTATAC
8869714 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
8869732 AGTGGTCCTTGGGGACATATAT
1 AGTGGTCCTTCGGGAC----AT
8869754 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
8869772 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
8869789 AATTTCATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
18 34 0.67
22 17 0.33
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:8869769 original size:40 final size:40
Alignment explanation
Indices: 8869709--8869788 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
8869699 AGTCGAGGGT
*
8869709 TATACAGTGGTCCTTCGGGACATAGTGGTCCTTGGGGACA
1 TATACAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
*
8869749 TATATAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1 TATACAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
8869789 AATTTCATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (40 bp):
TATACAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
Found at i:8878865 original size:18 final size:18
Alignment explanation
Indices: 8878844--8878885 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8878834 AGGAAATATA
*
8878844 ATATATGTTTTCAAAATT
1 ATATATGCTTTCAAAATT
*
8878862 ATATAAGCTTTCAAAATT
1 ATATATGCTTTCAAAATT
8878880 ATATAT
1 ATATAT
8878886 ATGTGTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
ATATATGCTTTCAAAATT
Found at i:8878971 original size:2 final size:2
Alignment explanation
Indices: 8878966--8879032 Score: 70
Period size: 2 Copynumber: 35.5 Consensus size: 2
8878956 ATAAGCTTTC
*
8878966 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA TA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
8879005 TT TA AA AA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8879033 TTCAAAAGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8879497 original size:20 final size:19
Alignment explanation
Indices: 8879458--8879508 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
8879448 CAAAAAAAAC
*
8879458 CGATCCCTTTGACTAAAGGAT
1 CGATCCC-TTGA-AAAAGGAT
8879479 CGATCTCCTTGAAAAAGGAT
1 CGATC-CCTTGAAAAAGGAT
*
8879499 TGATCCCTTG
1 CGATCCCTTG
8879509 GATTCTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 9 0.33
22 2 0.07
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (19 bp):
CGATCCCTTGAAAAAGGAT
Found at i:8879571 original size:21 final size:21
Alignment explanation
Indices: 8879526--8879576 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8879516 GTAGGGTTTA
** *
8879526 GATCGATCCCTTTGCCAAAAT
1 GATCGATCCCTTCCCCAAAAG
*
8879547 GATCGATCCCTTCCCCTAAAG
1 GATCGATCCCTTCCCCAAAAG
*
8879568 GATCAATCC
1 GATCGATCC
8879577 ATTTCTTGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (21 bp):
GATCGATCCCTTCCCCAAAAG
Found at i:8886304 original size:18 final size:18
Alignment explanation
Indices: 8886281--8886324 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
8886271 TTAGGATTAT
8886281 CTTTAGGTGA-TTTATTTC
1 CTTTAGGT-ATTTTATTTC
*
8886299 CTTTAGGTATTTTATTTT
1 CTTTAGGTATTTTATTTC
8886317 CTTTAGGT
1 CTTTAGGT
8886325 TACCTCAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (18 bp):
CTTTAGGTATTTTATTTC
Found at i:8901015 original size:27 final size:27
Alignment explanation
Indices: 8900985--8901036 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
8900975 ACTTCCTCCA
*
8900985 ATCTTTTAAAATCTATAATTTAGTCCT
1 ATCTTTTAAAATCTAAAATTTAGTCCT
*
8901012 ATCTTTTAAAATTTAAAATTTAGTC
1 ATCTTTTAAAATCTAAAATTTAGTC
8901037 TTTAGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.48
Consensus pattern (27 bp):
ATCTTTTAAAATCTAAAATTTAGTCCT
Found at i:8901070 original size:25 final size:25
Alignment explanation
Indices: 8901020--8901075 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
8901010 CTATCTTTTA
8901020 AAATTTAAAATTTAGTCTTTAGTTT
1 AAATTTAAAATTTAGTCTTTAGTTT
*
8901045 AAATTATAAACTTTAGAT-TTTA-TTT
1 AAATT-TAAAATTTAG-TCTTTAGTTT
8901070 -AATTTA
1 AAATTTA
8901076 GTACTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.14
25 8 0.29
26 13 0.46
27 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (25 bp):
AAATTTAAAATTTAGTCTTTAGTTT
Found at i:8902577 original size:2 final size:2
Alignment explanation
Indices: 8902570--8902628 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
8902560 AAAATTAATC
8902570 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8902612 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
8902629 AATACACATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8906820 original size:54 final size:54
Alignment explanation
Indices: 8906756--8906893 Score: 204
Period size: 54 Copynumber: 2.6 Consensus size: 54
8906746 TACTGAATGA
* * * *
8906756 GCACTATGTGTGCAACCTTAGAAATTCATAATAAGTTTATGAATTTCTGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTCATGAACTTCCGTATTG
8906810 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTCATGAACTTCCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTCATGAACTTCCGTATTG
* * * *
8906864 GCACTGTGTGTGCAATCTACGTAATTCATA
1 GCACTATGTGTGCAACCTAAGAAATTCATA
8906894 GTAGGTTGTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (54 bp):
GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTCATGAACTTCCGTATTG
Found at i:8907236 original size:81 final size:81
Alignment explanation
Indices: 8907007--8909987 Score: 3943
Period size: 81 Copynumber: 36.9 Consensus size: 81
8906997 TGTTCTAAAA
* * * * * *
8907007 TAAAAGACTAAAAGCCTAACTGCGCATTTGGAAGAAATGTGTCAATCATACAAATTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907072 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8907088 TAAAAGACTAAAAG-CTAACTGTGCATTTGGTATAAATGTGTCAAACATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907152 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * *
8907168 TAAAACACTAAAAGCCTAATTGTGCATTTGGAAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8907233 GTTAATTGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8907249 TAAAAGACTAAAAGCCTAACGGTGTATTTGGCAGAAAGATGTCAATCATGCCAGTTAGATGGAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907314 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * *
8907330 TAAAAAACTAGAAGCCTAAATATGCATTTGGAAGAAAGGTGTCAATCATGCTAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
** *
8907395 GTTAAATAACTTTAAG
66 GTTAAATGCCTTTGAG
* * * * * * * *
8907411 TTAACGACTAAAAGTCTAAATGTGCATTTAGCGGAAAGGTGTCAATCATGCCAATTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8907476 GTGAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* ** * ** **
8907492 TAAAACACTAAAAGAATAATTGTGCATTTAACAGATTGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907557 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
** * * *
8907573 TAAAAGACTAAAAGAATAAATGTGCATTTGGCATAAAGGTATCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907638 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8907654 TAAAAGACTAAAAGCCTAACAGTGCATTTGGAAGAAAGGTGTAAATCATGCTAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8907719 ATTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * *
8907735 TAAAAGACTAAAAGCCTAACTTTGTATTTGGTAGAAAGGTG-CAATCATGCTAGTTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8907799 GCTAAATTCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * * *
8907815 AAAAAGACTAAAAGCCTAATTGTGCATTTGGTAGAAAGCTGTCATTCATGCTAGTTAGAAGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907880 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * * * *
8907896 TAAAAGACTGAAAGCCTAACTATGTATTTGGAAAAAATGTGTCAATCATACCAGTGAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8907961 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8907977 TAAAAGACTAAAAGGCTAACTGTGCATTTGGCATAAATGTGTTAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8908042 GTTAAATACCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * * * *
8908058 TAAAACACTAAAAGCCTAATTGTGAATTTGGAAAAAAGGTGTCAATTATGCTAGTTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908123 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8908139 TAAAAGATTAAAAGCCTAACTGTGTATTTGGCAGAAATGTGTCAATCATGCCAATTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8908204 GTGAAATGCCTTTCAG
66 GTTAAATGCCTTTGAG
* * *
8908220 TAAAATACTAAAAGCCTAACTGTGCATTTGGCAGATAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8908285 GTTAAATGTCTTTGAG
66 GTTAAATGCCTTTGAG
*
8908301 TAAAAGACTAAAAGCCTAATTGTGCATTTGAG-AGAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 TAAAAGACTAAAAGCCTAACTGTGCATTTG-GCAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
8908365 GGTTAAATGCCTTTGAG
65 GGTTAAATGCCTTTGAG
*
8908382 TAAAAGACTAAAAGCCTAACTGTGAATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908447 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * ** * * * *
8908463 TAGAAGACTAAAAGCCTAACTGTGTATTTATCAAAAAGATATCAATCATGCCAGTTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908528 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * *
8908544 TAAAAGACTAAAAGTCTAACTGTGCATTTGGTAAAAATGTGTCAATCATGACAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908609 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* *
8908625 TAAAAGACTAAAAGCCTAACAGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAAATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908690 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
*
8908706 TAAAAGACTAAAAGACTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908771 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *** *
8908787 TAAAAGAATAAAAGCCTAACTGTGCATTTGGCAGAAATGTATCAATCATTATATTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8908852 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * *
8908868 TAAAAGACTGAAATCCTAACTGTGCATTTGGCAGAAAAGTGTCAATCATTCCAGTTAGAAGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8908933 GTTAAATGCGTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8908949 CAAAAGACTAAAAGCCTAACTATGCATTTGGCAGAAATGTGTCAATCATACCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
**
8909014 GTTAAATATCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * * * * *
8909030 TAAAAGACTAAAAGTCTAATTGTGTATTTGGTATAAATGTGTCAATCATGTCAGGTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8909095 GTTAAATGCCCTTGAT
66 GTTAAATGCCTTTGAG
* * * * * *
8909111 TAAAACACTAAAAGCTTAATTGTGCATTTGGAAGAAAGGTTTCAATCATGCCAGTCAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8909176 TTTAATTGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8909192 TAAAAGACTAAAAGCCTAACTGTGTATTTGGCATAAAGGTGTCAATCATACCAATTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909257 GTGAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
** * * * * *
8909273 TAAAATTCTTAAAGCCTAACTGTGCATTTGACAGATAGGTGTCAATAATGCTAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8909338 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * *
8909354 TAAAAAACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGTCAGTTTGATGAATG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909419 GTTAAATGCCTTTGTG
66 GTTAAATGCCTTTGAG
* * *
8909435 TAAAAGACTAAAAGCCTAAATGTGCATTTGGCAGAAATGTGTCAATCATACCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909500 GTTAAATGCCTTTGAT
66 GTTAAATGCCTTTGAG
* * * * * *
8909516 TAGAATACTTAAAGCCTAACTGTGCATTTGGCAAAAAGGTGTTAATCATGCCAGTTAGATGAAAA
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909581 GTTAAATGCCTTCGAG
66 GTTAAATGCCTTTGAG
* * * * * *
8909597 TTAAAGACTAAAAGACTAACAGTGCATTTGGTAGAAATGTGTCAATCATGCTAGTTAGA-GAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8909661 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * *
8909677 TAAAAG------A--CTAACTGTGGATTTGGCAGAAAGGTTTCAATCATGCCAGTTAGAAGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909734 GTTAAATGCTTTTGAG
66 GTTAAATGCCTTTGAG
** *** * *
8909750 TAAAAGACTAAAAGCCTAACTGTGCATTTTACAGAAATACGTCAATCATGCTAGTTAGATAAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8909815 GTTAAATGCCTTTGAT
66 GTTAAATGCCTTTGAG
* ** * * * *
8909831 TAAAAGACTAAAACCCTAACCATGTATTTGGAATAAAGGTGTCAATCATGCCAGTTAAATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8909896 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * *
8909912 TAAAAGACTAAAAGCCTAACAGTGCATTTGGCAGAAAGGCGACAATAATGCAAGTTAGATGAAAA
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8909977 GTTAAATGCCT
66 GTTAAATGCCT
8909988 CTGGATGAAA
Statistics
Matches: 2516, Mismatches: 371, Indels: 26
0.86 0.13 0.01
Matches are distributed among these distances:
72 38 0.02
73 26 0.01
74 1 0.00
79 1 0.00
80 167 0.07
81 2282 0.91
82 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (81 bp):
TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATGCCTTTGAG
Found at i:8913834 original size:54 final size:54
Alignment explanation
Indices: 8913752--8913927 Score: 250
Period size: 54 Copynumber: 3.3 Consensus size: 54
8913742 TACCGAATGA
8913752 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
*
8913806 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * * *
8913860 GCACTATGTGTGCAACCCACA-TAATTCATAGTAAGTTT-TGGATTATT-GTATTG
1 GCACTATGTGTGCAACCTA-AGAAATTCATAATAAGTTTATGAATT-TTCGTATTG
* *
8913913 GCACTACGGGTGCAA
1 GCACTATGTGTGCAA
8913928 ACAATAGAAT
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
53 24 0.21
54 87 0.78
55 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (54 bp):
GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
Found at i:8914248 original size:81 final size:81
Alignment explanation
Indices: 8914003--8914803 Score: 1054
Period size: 81 Copynumber: 9.9 Consensus size: 81
8913993 TGTTCTAAAA
* * * *
8914003 TAAAAGACTAAAAGTCTAATTGTGCATTTGGCACAAAGGTGTCAATCATGCCAGTTTGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8914068 GTTAAATGCCTTT-ACG
66 GTTAAATGCCTTTGA-G
* * *
8914084 TAAAAGACTAAAAGCCTAACTGTGCATTTGG-AAAAAAGTGTCAATCATGCCAGTTAGATGAATG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8914148 GTTAAATGTCTTTAAG
66 GTTAAATGCCTTTGAG
* * * *
8914164 TAAAATACTAAAAGCCTAACTGTGCATTTGGCAGTAAGGTTTCAATCATGCCAATTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* * *
8914229 TTTCAATGCTTTTGAG
66 GTTAAATGCCTTTGAG
* *** * *
8914245 TAAAAGACTAAAAACCTAA-TGTTTTTTTGGTAGAAAGGTGTCAATCATGCTAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8914309 GTTAAATGCCTTTGAA
66 GTTAAATGCCTTTGAG
* * * *
8914325 TAAAAGACTAAAAGCCTAATTGTGCATTTGGCAAAAAGGTATCAATCATGTCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8914390 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * *
8914406 TAAAAGACTAAATGCCTAACTTTGCATTTGGCAGAAATGTGTCAGTCATGCCAATTAGATGAAAA
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8914471 GTTAAATGCATTTGAG
66 GTTAAATGCCTTTGAG
* * *
8914487 TAAAAGACTAAAAGTCTAACTGTGTATTTGGCAGAAAGCTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8914552 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * * *
8914568 TAAAAGGCTAAAAGTCTAACTATGCATTTGGTATAAAGATGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8914633 GTTAAATGCTTTTGAG
66 GTTAAATGCCTTTGAG
* * *
8914649 TAAAAGACTAAAA-CCTTAACTGTGCATTTGGTAGGAATGTGTCAATCATGCCAGTTAGATGAAA
1 TAAAAGACTAAAAGCC-TAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
*
8914713 GGTTAAATGTCTTTGAG
65 GGTTAAATGCCTTTGAG
* * * * * *
8914730 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCATAAAAGTGCCAATAATG-CAGGTTATATAAAA
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCA-GTTAGATGAAA
8914794 GGTTAAATGC
65 GGTTAAATGC
8914804 TTCTGGATGA
Statistics
Matches: 625, Mismatches: 89, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
80 142 0.23
81 481 0.77
82 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (81 bp):
TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATGCCTTTGAG
Found at i:8918478 original size:54 final size:53
Alignment explanation
Indices: 8918413--8918557 Score: 173
Period size: 53 Copynumber: 2.7 Consensus size: 53
8918403 TTATCGAATG
* *
8918413 AGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATT
1 AGCACTGTGTGTGCAACCCAAGAAATTCATAATAAGTTTA-GAATTTCCATATT
* * ***
8918467 GGCACTGTGTGTGAAACCCAAGAAATTCATAATAAGTTTAGAATTTTTGTATT
1 AGCACTGTGTGTGCAACCCAAGAAATTCATAATAAGTTTAGAATTTCCATATT
* * * * *
8918520 AGCATTGTATGTGCAACCCACGTAATTCATAGTAAGTT
1 AGCACTGTGTGTGCAACCCAAGAAATTCATAATAAGTT
8918558 GTGGATTATC
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 41 0.53
54 36 0.47
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (53 bp):
AGCACTGTGTGTGCAACCCAAGAAATTCATAATAAGTTTAGAATTTCCATATT
Found at i:8918803 original size:81 final size:81
Alignment explanation
Indices: 8918664--8919222 Score: 794
Period size: 81 Copynumber: 6.9 Consensus size: 81
8918654 TGTTCTAAAA
* * *
8918664 TAAAAGACTTAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATACCAATTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8918729 GTTAAATGTCTTTGAG
66 GTTAAATGTCTTTGAG
* * * **
8918745 TAAAATACTAAAAGCCTAACTGTGCATTTGGCATAAAGGTGTAAATCATTTCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* * *
8918810 GTTAAATTTCCTTGAT
66 GTTAAATGTCTTTGAG
** * * *
8918826 TAAAAGACTAAAATTCTAATTGTGCATTTGACAGAAAGGTGTCAATCATGCCACTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8918891 GTTAAATGCCTTTGAG
66 GTTAAATGTCTTTGAG
* * * *
8918907 TAAAAAACTAAAAGCCTAATTGTGCATTTGGCAGAAATGTGTCAATCATGCCAGTTAGATGAAAT
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8918972 GTTAAATGTCTTTGAG
66 GTTAAATGTCTTTGAG
* * * *
8918988 TAAAAGACAAAAATCCTAACTGTGTATTTGGCAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
8919053 GTTAAATGCCTTTAAG
66 GTTAAATGTCTTTGAG
*
8919069 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAAATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
8919134 GTTAAATGACTTTGAG
66 GTTAAATGTCTTTGAG
* ** * * * *
8919150 TCAAAGACTAAAATTCTAACTGTGCATTTAGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
8919215 GTTAAATG
66 GTTAAATG
8919223 CCTCTGAACG
Statistics
Matches: 423, Mismatches: 55, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 423 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (81 bp):
TAAAAGACTAAAAGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATGTCTTTGAG
Found at i:8927184 original size:29 final size:30
Alignment explanation
Indices: 8927108--8927191 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
8927098 TACACAAATA
8927108 TTTAAAA-TTACACTTTGATTC-CTAAACTT
1 TTTAAAATTTACACTTTGA-TCACTAAACTT
* * *
8927137 TTCTAAAGTTTATACTTTGGTCACTAAAC-T
1 TT-TAAAATTTACACTTTGATCACTAAACTT
*
8927167 TTTAAAATTTACATTTTGATCACTA
1 TTTAAAATTTACACTTTGATCACTA
8927192 GCTAAAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 21 0.47
30 9 0.20
31 15 0.33
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTAAAATTTACACTTTGATCACTAAACTT
Found at i:8934319 original size:22 final size:22
Alignment explanation
Indices: 8934291--8934334 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8934281 ATATAGTAGA
*
8934291 AGCGACGGTAGT-AGCAGAAGGT
1 AGCGACGATAGTGA-CAGAAGGT
8934313 AGCGACGATAGTGACAGAAGGT
1 AGCGACGATAGTGACAGAAGGT
8934335 GACGGCGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.34, C:0.14, G:0.39, T:0.14
Consensus pattern (22 bp):
AGCGACGATAGTGACAGAAGGT
Found at i:8934567 original size:3 final size:3
Alignment explanation
Indices: 8934559--8934674 Score: 85
Period size: 3 Copynumber: 39.0 Consensus size: 3
8934549 TTAAATAAAA
* * * * * *
8934559 AAT AAT AAT AAT AAT AAT AAT AA- AGT AGT AGT AGT AGT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
8934606 AAT AAT AAT AAG AAT AAG AAT AAG AAT AAGC AAGT AAC AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT
8934653 AAT AAT AAT AA- AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
8934675 TCGGTCAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
2 5 0.05
3 85 0.89
4 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:8935191 original size:21 final size:21
Alignment explanation
Indices: 8935171--8935209 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8935161 TGATTATAAT
8935171 TTCCAT-TCAATTTCAATTAA
1 TTCCATATCAATTTCAATTAA
8935191 TTCCATATCAATTTCAATT
1 TTCCATATCAATTTCAATT
8935210 CATCTTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (21 bp):
TTCCATATCAATTTCAATTAA
Found at i:8937462 original size:20 final size:20
Alignment explanation
Indices: 8937437--8937484 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
8937427 GGGAAAAGTT
8937437 GGATGATATAGGCACATTTC
1 GGATGATATAGGCACATTTC
8937457 GGATGATATAGGCACATTTC
1 GGATGATATAGGCACATTTC
*
8937477 GAATGATA
1 GGATGATA
8937485 AAGTGAAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (20 bp):
GGATGATATAGGCACATTTC
Found at i:8940572 original size:20 final size:20
Alignment explanation
Indices: 8940544--8940590 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
8940534 TATCAACTTT
*
8940544 GAAGAGGCGTAGCGAGACAA
1 GAAGTGGCGTAGCGAGACAA
8940564 GAAGTGGCGTAGCGAGACAA
1 GAAGTGGCGTAGCGAGACAA
8940584 GAAGTGG
1 GAAGTGG
8940591 AAAACTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.43, T:0.09
Consensus pattern (20 bp):
GAAGTGGCGTAGCGAGACAA
Found at i:8944190 original size:117 final size:118
Alignment explanation
Indices: 8944068--8944335 Score: 282
Period size: 118 Copynumber: 2.3 Consensus size: 118
8944058 TAATATTCCA
* ** * * *
8944068 ATTTCT-TATTGAAATGGGCTTTCAGTATG-CCCAGCATTTGCTTCTTACTAATATGAG-CTTTA
1 ATTTCTGT-TTGAAATGGGCATTCAAAATGTCCCAACATTTGCTTCTTACTAAGATGAGCCTCTA
* *
8944130 AAAGATGCCCAAATATTCATACTGAT-GTGGGCCTTCAAAATGCCCCACATGGATC
65 AAA-ATGCCCAAATATTCATACTG-TCGTGAGCCTTCAAAATACCCCACATGGATC
* * * *
8944185 ATTTCTGTTTGAAATGGGCATTCAAAATGTCTCAACATTTTCTTCTTGCTGAGATGAGCCTCTAA
1 ATTTCTGTTTGAAATGGGCATTCAAAATGTCCCAACATTTGCTTCTTACTAAGATGAGCCTCTAA
* *
8944250 GAATGCCCAAATATTCATATTGTCGTGAGCCTTCAAAATACCCCACCAT---TC
66 AAATGCCCAAATATTCATACTGTCGTGAGCCTTCAAAATACCCCA-CATGGATC
* *
8944301 TATTTCTCG-TTGAAATGGGCCTTCAAGATGTCCCA
1 -ATTTCT-GTTTGAAATGGGCATTCAAAATGTCCCA
8944336 TATGGATTTG
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
116 2 0.02
117 54 0.43
118 62 0.49
119 9 0.07
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (118 bp):
ATTTCTGTTTGAAATGGGCATTCAAAATGTCCCAACATTTGCTTCTTACTAAGATGAGCCTCTAA
AAATGCCCAAATATTCATACTGTCGTGAGCCTTCAAAATACCCCACATGGATC
Found at i:8948746 original size:7 final size:7
Alignment explanation
Indices: 8948711--8948751 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
8948701 ATAAAAGTAC
8948711 AAATGCA
1 AAATGCA
8948718 AAATG-A
1 AAATGCA
8948724 AAATGCA
1 AAATGCA
8948731 AAGATGCA
1 AA-ATGCA
8948739 AAATGC-
1 AAATGCA
8948745 AAATGCA
1 AAATGCA
8948752 TGTATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:8950199 original size:12 final size:12
Alignment explanation
Indices: 8950176--8950214 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8950166 TTTAATATCT
*
8950176 AAAAATAAAATA
1 AAAAATATAATA
8950188 AAAACAT-TAATA
1 AAAA-ATATAATA
8950200 AAAAATATAATA
1 AAAAATATAATA
8950212 AAA
1 AAA
8950215 TATTATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATATAATA
Found at i:8950775 original size:17 final size:18
Alignment explanation
Indices: 8950742--8950777 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8950732 AATTCCAAGA
8950742 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
8950760 AAATATA-TATTTTTTAT
1 AAATATATTAATTTTTAT
8950777 A
1 A
8950778 TTTTTATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:8951056 original size:148 final size:147
Alignment explanation
Indices: 8950785--8951056 Score: 415
Period size: 148 Copynumber: 1.8 Consensus size: 147
8950775 ATATTTTTAT
* *
8950785 AAGTAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCCT
1 AAGTAAGATATTTATTTACTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCAT
** *
8950850 TTCTTAATATTAAAAAATAAATAAATATCAATAAAACATTTTTCTAAAAATAATTAAAAAAATAA
66 TTCTTAATATTAAAAAATAAATAAATA-CAATAAAACATGATTCAAAAAATAATTAAAAAAATAA
8950915 ATTATATATAATTTATAA
130 ATTATATATAATTTATAA
* *
8950933 AAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAGCCCAT
1 AAGTAAGATATTTATTTACTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCAT
8950998 TTCTTAATATT-AAAAATAAATAAATA-AATAAAAACATGATT-AAAATAATATATATAAAA
66 TTCTTAATATTAAAAAATAAATAAATACAAT-AAAACATGATTCAAAA-AATA-AT-TAAAA
8951057 TTAAAGCAAA
Statistics
Matches: 113, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
145 6 0.05
146 13 0.12
147 17 0.15
148 77 0.68
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (147 bp):
AAGTAAGATATTTATTTACTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGACAACCCAT
TTCTTAATATTAAAAAATAAATAAATACAATAAAACATGATTCAAAAAATAATTAAAAAAATAAA
TTATATATAATTTATAA
Found at i:8951091 original size:148 final size:143
Alignment explanation
Indices: 8950774--8951171 Score: 412
Period size: 148 Copynumber: 2.7 Consensus size: 143
8950764 ATATATTTTT
* *
8950774 TATAT-TTTTATAAGTAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCTTT
1 TATATATTTTATAAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTT
* ** *
8950838 AAGACAACCCCTTTCTTAATATTAAAAAATAAATAAATATCAATAAAACATTTTTCTAAAAATAA
66 AAGAC-AGCCCTTTCTTAATATT-AAAAATAAATAAATA-CAATAAAACATGATTCAAAAAATAA
*
8950903 TTAAAAAAATAAATTA
128 TTAAAAAAACAAATTA
*
8950919 TATATAATTTATAAAAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCT
1 TATAT-ATTT-TATAAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCT
8950984 TTAAGACAGCCCATTTCTTAATATTAAAAATAAATAAATA-AATAAAAACATGATT-AAAATAAT
64 TTAAGACAGCCC-TTTCTTAATATTAAAAATAAATAAATACAAT-AAAACATGATTCAAAA-AAT
8951047 ATATATAAAATTAAAGCAAA-TA
126 A-AT-TAAAA--AAA-CAAATTA
* * * * * * * * **
8951069 TGTATATTTTATAAGCATGATATTTA-TTATTTTTAAAATACCATAATAGGACATT-TAGTTATT
1 TATATATTTTATAAGTAAGATATTTATTTA-TTTAAAAATATCAGAAAATGAC-TTCTAGTTGCT
* * * *
8951132 TTAAGACTGCCCTTTCTGAGTATTTAAAAATAAAAAAATA
64 TTAAGACAGCCCTTTCTTAATA-TTAAAAATAAATAAATA
8951172 TTATTATTTA
Statistics
Matches: 216, Mismatches: 23, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
145 11 0.05
146 13 0.06
147 35 0.16
148 139 0.64
149 6 0.03
150 9 0.04
151 3 0.01
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (143 bp):
TATATATTTTATAAGTAAGATATTTATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTT
AAGACAGCCCTTTCTTAATATTAAAAATAAATAAATACAATAAAACATGATTCAAAAAATAATTA
AAAAAACAAATTA
Found at i:8951323 original size:30 final size:30
Alignment explanation
Indices: 8951231--8951323 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
8951221 ATTAGTGAAT
* *
8951231 AAAACATAAATAATAATAAACAAACA-AATA
1 AAAAAATAAATAATAATAAA-AAATATAATA
* * * *
8951261 AATAAATAAATTACTAATTTAAACATAT--TA
1 AAAAAATAAA-TAATAA-TAAAAAATATAATA
*
8951291 AAAAAATAAATGATAATAAAAAATATAATA
1 AAAAAATAAATAATAATAAAAAATATAATA
8951321 AAA
1 AAA
8951324 TTGCATTAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
28 8 0.17
29 4 0.09
30 24 0.51
31 8 0.17
32 3 0.06
ACGTcount: A:0.69, C:0.05, G:0.01, T:0.25
Consensus pattern (30 bp):
AAAAAATAAATAATAATAAAAAATATAATA
Found at i:8952674 original size:3 final size:3
Alignment explanation
Indices: 8952666--8952755 Score: 78
Period size: 3 Copynumber: 30.0 Consensus size: 3
8952656 TTTGGGTCTG
* * * * *
8952666 TAA TAA TAA TAA TAT TAA TAA TAA T-A TTA TTA TTA TTA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
8952711 -AA TAA TAA TAA TAA T-A GAA TAA TAA TAAA TAA TAA TAA TGAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA
8952756 AATGGAGAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
2 5 0.07
3 62 0.82
4 9 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:8952733 original size:11 final size:10
Alignment explanation
Indices: 8952667--8952748 Score: 62
Period size: 11 Copynumber: 8.1 Consensus size: 10
8952657 TTGGGTCTGT
8952667 AATAATAATA
1 AATAATAATA
8952677 ATATTAATAAT-
1 A-A-TAATAATA
* *
8952688 AATATTATTA
1 AATAATAATA
* * *
8952698 TTATTATAATT
1 -AATAATAATA
8952709 AA-AATAAT-
1 AATAATAATA
8952717 AATAATAATA
1 AATAATAATA
8952727 GAATAATAATA
1 -AATAATAATA
8952738 AATAATAATA
1 AATAATAATA
8952748 A
1 A
8952749 TGAATAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
8 2 0.04
9 16 0.29
10 14 0.25
11 17 0.30
12 7 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (10 bp):
AATAATAATA
Found at i:8958384 original size:6 final size:6
Alignment explanation
Indices: 8958373--8958402 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8958363 AGAACACGAA
8958373 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
8958403 TATAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:8958721 original size:20 final size:20
Alignment explanation
Indices: 8958696--8958737 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8958686 AACTATTTCG
8958696 TATTTTCATTTTAAT-AATTA
1 TATTTTCA-TTTAATCAATTA
*
8958716 TATTTTGATTTAATCAATTA
1 TATTTTCATTTAATCAATTA
8958736 TA
1 TA
8958738 CTACCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTTCATTTAATCAATTA
Found at i:8961822 original size:2 final size:2
Alignment explanation
Indices: 8961815--8961842 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8961805 CACCGAATAC
8961815 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8961843 ATGTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8968226 original size:45 final size:44
Alignment explanation
Indices: 8967856--8968214 Score: 458
Period size: 44 Copynumber: 8.2 Consensus size: 44
8967846 ACATTTACCG
* *
8967856 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCT
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
* * * * *
8967899 CATGTTTCTTTGTTGTGTGTAAGGGTAAGCCTTACATTTTCCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
* * * * * *
8967943 CAGGTTCATGTACCGTGTTCAAGGGTAAGCCTTACAGTTT-CCT
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
* **
8967986 CAGCTTCCTTTGCTGTGTGCAAGGGTAAGCCTTGTAGTTTCCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
*
8968030 CAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
*
8968074 CAAGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
8968118 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
* * *
8968161 CATGTTTCTTTGCTGTGTGCAGAGGATAAGACCTTACCA-TTT-CCC
1 CAGGTTCCTTTGCTGTGTGCA-AGGGTAAG-CCTTA-CAGTTTCCCC
*
8968206 CAGGCTCCT
1 CAGGTTCCT
8968215 CTGTTTTGTG
Statistics
Matches: 271, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
43 90 0.33
44 162 0.60
45 17 0.06
46 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.34
Consensus pattern (44 bp):
CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
Found at i:8968226 original size:88 final size:87
Alignment explanation
Indices: 8967856--8968214 Score: 481
Period size: 87 Copynumber: 4.1 Consensus size: 87
8967846 ACATTTACCG
* * * * *
8967856 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCTCATGTTTCTTTGTTGTGTGTAA
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGCTGTGTGCAA
*
8967921 GGGTAAGCCTTACATTTTCCCC
66 GGGTAAGCCTTACAGTTTCCCC
* * * * * *
8967943 CAGGTTCATGTACCGTGTTCAAGGGTAAGCCTTACAGTTTCCTCA-GCTTCCTTTGCTGTGTGCA
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATG-TTCCTTTGCTGTGTGCA
**
8968007 AGGGTAAGCCTTGTAGTTTCCCC
65 AGGGTAAGCCTTACAGTTTCCCC
* *
8968030 CAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTTCCTTTGCTGTGTGCA
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCCATGTTCCTTTGCTGTGTGCA
8968095 AGGGTAAGCCTTACAGTTTCCCC
65 AGGGTAAGCCTTACAGTTTCCCC
*
8968118 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTTCTTTGCTGTGTGCAG
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGCTGTGTGCA-
*
8968183 AGGATAAGACCTTACCA-TTT-CCC
65 AGGGTAAG-CCTTA-CAGTTTCCCC
*
8968206 CAGGCTCCT
1 CAGGTTCCT
8968215 CTGTTTTGTG
Statistics
Matches: 240, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
86 1 0.00
87 129 0.54
88 99 0.41
89 9 0.04
90 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.34
Consensus pattern (87 bp):
CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGCTGTGTGCAA
GGGTAAGCCTTACAGTTTCCCC
Found at i:8970273 original size:30 final size:30
Alignment explanation
Indices: 8970232--8970305 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
8970222 TTGGTCAACT
* * *
8970232 CGTTAACTTTGACCGAGTCAATCTATTGAC
1 CGTTGACTTTGACCGAGTCAAACCATTGAC
* *
8970262 CGTTGACTTTGACCGAGTCAAACCGTTGAT
1 CGTTGACTTTGACCGAGTCAAACCATTGAC
8970292 CGTTGACTTTGACC
1 CGTTGACTTTGACC
8970306 AAAGAGTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (30 bp):
CGTTGACTTTGACCGAGTCAAACCATTGAC
Found at i:8973280 original size:31 final size:31
Alignment explanation
Indices: 8973224--8973331 Score: 153
Period size: 31 Copynumber: 3.5 Consensus size: 31
8973214 ATGTTAAACC
* * * *
8973224 AAATACAAATAAGAAAGCAATAAAATGAATT
1 AAATATAAATAATAAAGAAACAAAATGAATT
*
8973255 AAATATAAACAATAAAGAAACAAAATGAATT
1 AAATATAAATAATAAAGAAACAAAATGAATT
*
8973286 AAACATAAATAATAAAGAAACAAAATGAATT
1 AAATATAAATAATAAAGAAACAAAATGAATT
*
8973317 GAATATAAATAATAA
1 AAATATAAATAATAA
8973332 TAAATAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.67, C:0.06, G:0.07, T:0.20
Consensus pattern (31 bp):
AAATATAAATAATAAAGAAACAAAATGAATT
Found at i:8975586 original size:22 final size:21
Alignment explanation
Indices: 8975545--8975586 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
8975535 TGGTCAAAGG
*
8975545 GATCGATCTTTATACTAAAAA
1 GATCGATCTTTATACCAAAAA
8975566 GATCGATCCTTTA-AGCCAAAA
1 GATCGAT-CTTTATA-CCAAAA
8975587 TACCTTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
GATCGATCTTTATACCAAAAA
Found at i:8979212 original size:21 final size:21
Alignment explanation
Indices: 8979186--8979230 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8979176 AAATAATTCG
8979186 ATCATTGTA-AGAAAGGGATCA
1 ATCATT-TAGAGAAAGGGATCA
* *
8979207 ATCATTTAGGGGAAGGGATCA
1 ATCATTTAGAGAAAGGGATCA
8979228 ATC
1 ATC
8979231 TGTTTCATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (21 bp):
ATCATTTAGAGAAAGGGATCA
Found at i:8979308 original size:20 final size:20
Alignment explanation
Indices: 8979246--8979313 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
8979236 CATCGAAGGC
* *
8979246 TTGATTCTTTTGATGAATGGA
1 TTGATCCTTTTG-TGAAGGGA
* *
8979267 TTGATCATTTTCCTCG-AGGGA
1 TTGATCCTTTT-GT-GAAGGGA
8979288 TTGATCCTTTTGTGAAGGGA
1 TTGATCCTTTTGTGAAGGGA
*
8979308 TCGATC
1 TTGATC
8979314 AAAAACTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
19 1 0.03
20 11 0.30
21 24 0.65
22 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (20 bp):
TTGATCCTTTTGTGAAGGGA
Found at i:8980349 original size:15 final size:16
Alignment explanation
Indices: 8980331--8980367 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8980321 TCATCGTGAG
8980331 CATCATCCATC-TGCT
1 CATCATCCATCTTGCT
*
8980346 CATC-TCCATCTTGGT
1 CATCATCCATCTTGCT
8980361 CATCATC
1 CATCATC
8980368 TCGAAGCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 11 0.58
16 2 0.11
ACGTcount: A:0.19, C:0.38, G:0.08, T:0.35
Consensus pattern (16 bp):
CATCATCCATCTTGCT
Found at i:8985744 original size:14 final size:15
Alignment explanation
Indices: 8985725--8985754 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8985715 CTAGAACTAT
8985725 TTTAGTTTA-TTTTA
1 TTTAGTTTAGTTTTA
8985739 TTTAGTTTAGTTTTA
1 TTTAGTTTAGTTTTA
8985754 T
1 T
8985755 CAGTATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (15 bp):
TTTAGTTTAGTTTTA
Found at i:8987126 original size:59 final size:59
Alignment explanation
Indices: 8987061--8987185 Score: 223
Period size: 59 Copynumber: 2.1 Consensus size: 59
8987051 TTCATTGAGG
*
8987061 GTTTGGGTTAGGCTCGATAGTTGTTAGTGTGAGTGTTACTTTGACCTTAGGAGTCATGA
1 GTTTGGGTTAGGCTCGATAGTTGTTAGTGTGAGTGTTACTTTGACCTTAAGAGTCATGA
* *
8987120 GTTTGGGTTGGGCTCGGTAGTTGTTAGTGTGAGTGTTACTTTGACCTTAAGAGTCATGA
1 GTTTGGGTTAGGCTCGATAGTTGTTAGTGTGAGTGTTACTTTGACCTTAAGAGTCATGA
8987179 GTTTGGG
1 GTTTGGG
8987186 GTTATAAGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.17, C:0.10, G:0.34, T:0.39
Consensus pattern (59 bp):
GTTTGGGTTAGGCTCGATAGTTGTTAGTGTGAGTGTTACTTTGACCTTAAGAGTCATGA
Found at i:8989371 original size:12 final size:13
Alignment explanation
Indices: 8989342--8989416 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 13
8989332 ATGTTCTTGT
8989342 AGTATCAATACTC
1 AGTATCAATACTC
*
8989355 A-TATCGATA-TC
1 AGTATCAATACTC
*
8989366 AGTATCAATACAGTTGT
1 AGTATCAATAC---T-C
*
8989383 AGTAACAATACTC
1 AGTATCAATACTC
8989396 A-TATCAATACT-
1 AGTATCAATACTC
*
8989407 AGTACCAATA
1 AGTATCAATA
8989417 TTGTTTCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
11 4 0.08
12 30 0.62
13 2 0.04
14 1 0.02
16 1 0.02
17 10 0.21
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (13 bp):
AGTATCAATACTC
Found at i:8989416 original size:41 final size:41
Alignment explanation
Indices: 8989338--8989416 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
8989328 GATAATGTTC
* * *
8989338 TTGTAGTATCAATACTCATATCGATATCAGTATCAATACAG
1 TTGTAGTAACAATACTCATATCAATATCAGTACCAATACAG
8989379 TTGTAGTAACAATACTCATATCAATA-CTAGTACCAATA
1 TTGTAGTAACAATACTCATATCAATATC-AGTACCAATA
8989417 TTGTTTCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (41 bp):
TTGTAGTAACAATACTCATATCAATATCAGTACCAATACAG
Found at i:8992565 original size:20 final size:20
Alignment explanation
Indices: 8992527--8992565 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8992517 GTTGAAAATT
*
8992527 GTGATTGGTATGGAATAAAA
1 GTGATTGGTAGGGAATAAAA
*
8992547 GTGATTGGTAGGGACTAAA
1 GTGATTGGTAGGGAATAAA
8992566 TTGAGGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (20 bp):
GTGATTGGTAGGGAATAAAA
Found at i:8996381 original size:19 final size:19
Alignment explanation
Indices: 8996357--8996405 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
8996347 CTAAGGAATT
8996357 GATCCTTTTCAAGGGGATC
1 GATCCTTTTCAAGGGGATC
* *
8996376 GATCCTTTGGTCAATGTGATC
1 GATCCTTT--TCAAGGGGATC
8996397 GATCCTTTT
1 GATCCTTTT
8996406 GTTATGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
21 17 0.65
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (19 bp):
GATCCTTTTCAAGGGGATC
Found at i:8997271 original size:15 final size:15
Alignment explanation
Indices: 8997251--8997279 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8997241 AGTCTACTTT
8997251 GATGGCCATAAGGAC
1 GATGGCCATAAGGAC
8997266 GATGGCCATAAGGA
1 GATGGCCATAAGGA
8997280 AAGTGTGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.34, T:0.14
Consensus pattern (15 bp):
GATGGCCATAAGGAC
Found at i:8999305 original size:23 final size:24
Alignment explanation
Indices: 8999266--8999330 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
8999256 TAATTTATAA
* *
8999266 ATAAAAAT-AGATATATTTATATTGT
1 ATAAAAATAAG-T-TATTTATATAGC
* *
8999291 A-AAAAATAAGTTATTTGTGTAGC
1 ATAAAAATAAGTTATTTATATAGC
8999314 ATAAAAATAAGTTATTT
1 ATAAAAATAAGTTATTT
8999331 TTTATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.26
24 22 0.65
25 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (24 bp):
ATAAAAATAAGTTATTTATATAGC
Found at i:8999407 original size:155 final size:155
Alignment explanation
Indices: 8999242--8999561 Score: 631
Period size: 155 Copynumber: 2.1 Consensus size: 155
8999232 ATATCATCGA
*
8999242 TAATATTTTTATTTTAATTTATAAATAAAAATAGATATATTTATATTGTAAAAAATAAGTTATTT
1 TAATAGTTTTATTTTAATTTATAAATAAAAATAGATATATTTATATTGTAAAAAATAAGTTATTT
8999307 GTGTAGCATAAAAATAAGTTATTTTTTATATTAAATTTAAATAACTATATATTTTTCATATACAA
66 GTGTAGCATAAAAATAAGTTATTTTTTATATTAAATTTAAATAACTATATATTTTTCATATACAA
8999372 AAGTAAAATAATTTGTAAAATAATT
131 AAGTAAAATAATTTGTAAAATAATT
8999397 TAATAGTTTTATTTTAATTTATAAATAAAAATAGATATATTTATATTGTAAAAAATAAGTTATTT
1 TAATAGTTTTATTTTAATTTATAAATAAAAATAGATATATTTATATTGTAAAAAATAAGTTATTT
8999462 GTGTAGCATAAAAATAAGTTATTTTTTATATTAAATTTAAATAACTATATATTTTTCATATACAA
66 GTGTAGCATAAAAATAAGTTATTTTTTATATTAAATTTAAATAACTATATATTTTTCATATACAA
8999527 AAGTAAAATAATTTGTAAAATAATT
131 AAGTAAAATAATTTGTAAAATAATT
8999552 TAATAGTTTT
1 TAATAGTTTT
8999562 GGAAAGTTAT
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 164 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (155 bp):
TAATAGTTTTATTTTAATTTATAAATAAAAATAGATATATTTATATTGTAAAAAATAAGTTATTT
GTGTAGCATAAAAATAAGTTATTTTTTATATTAAATTTAAATAACTATATATTTTTCATATACAA
AAGTAAAATAATTTGTAAAATAATT
Found at i:8999460 original size:23 final size:24
Alignment explanation
Indices: 8999421--8999485 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
8999411 TAATTTATAA
* *
8999421 ATAAAAAT-AGATATATTTATATTGT
1 ATAAAAATAAG-T-TATTTATATAGC
* *
8999446 A-AAAAATAAGTTATTTGTGTAGC
1 ATAAAAATAAGTTATTTATATAGC
8999469 ATAAAAATAAGTTATTT
1 ATAAAAATAAGTTATTT
8999486 TTTATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.26
24 22 0.65
25 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (24 bp):
ATAAAAATAAGTTATTTATATAGC
Found at i:8999725 original size:31 final size:31
Alignment explanation
Indices: 8999686--8999775 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
8999676 TTATAATTTC
8999686 ATCCTTAAATTATGAATCTCATTCTAAATTA
1 ATCCTTAAATTATGAATCTCATTCTAAATTA
* *
8999717 GTCCTTAAACTTTTGAA--T-ATTC-AAATTTA
1 ATCCTTAAA-TTATGAATCTCATTCTAAA-TTA
** *
8999746 ATCCCCAAACTATGAATCTCATTCTAAATT
1 ATCCTTAAATTATGAATCTCATTCTAAATT
8999776 GGTTCCTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
28 8 0.17
29 13 0.28
30 2 0.04
31 14 0.30
32 9 0.20
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (31 bp):
ATCCTTAAATTATGAATCTCATTCTAAATTA
Found at i:8999744 original size:60 final size:60
Alignment explanation
Indices: 8999627--8999813 Score: 195
Period size: 60 Copynumber: 3.1 Consensus size: 60
8999617 GTGTCATATC
* * * *
8999627 TCCCTAAACTAT-AACTCTTATTTTAAATTAGTCCTTAAACTTTTAAATATTATAATTTCA
1 TCCCCAAACTATGAA-TCTCATTCTAAATTAGTCCTTAAACTTTTAAATATTATAATTTAA
** * *
8999687 TCCTTAAATTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCA-AATTTAA
1 TCCCCAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATATT-ATAATTTAA
* * * *
8999747 TCCCCAAACTATGAATCTCATTCTAAATTGGTTCC-TAAA-TTTTAGATCTT-TCAATTTCA
1 TCCCCAAACTATGAATCTCATTCTAAATTAG-TCCTTAAACTTTTAAATATTAT-AATTTAA
8999806 TCCCCAAA
1 TCCCCAAA
8999814 TTTATCCAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
59 22 0.20
60 80 0.74
61 6 0.06
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (60 bp):
TCCCCAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATATTATAATTTAA
Found at i:9002906 original size:6 final size:6
Alignment explanation
Indices: 9002895--9002920 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9002885 GGCATGTGTC
9002895 TGAAAG TGAAAG TGAAAG TGAAAG TG
1 TGAAAG TGAAAG TGAAAG TGAAAG TG
9002921 GGCGTGGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (6 bp):
TGAAAG
Found at i:9003736 original size:5 final size:5
Alignment explanation
Indices: 9003726--9003759 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
9003716 GGATTGAATG
9003726 GACTC GACTC GACTC GAGCTC GAGCTC GACTC GA
1 GACTC GACTC GACTC GA-CTC GA-CTC GACTC GA
9003760 GTTCTTAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (5 bp):
GACTC
Found at i:9003755 original size:17 final size:16
Alignment explanation
Indices: 9003728--9003760 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9003718 ATTGAATGGA
9003728 CTCGACTCGACTCGAG
1 CTCGACTCGACTCGAG
9003744 CTCGAGCTCGACTCGAG
1 CTCGA-CTCGACTCGAG
9003761 TTCTTAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.18
Consensus pattern (16 bp):
CTCGACTCGACTCGAG
Found at i:9004104 original size:14 final size:14
Alignment explanation
Indices: 9004085--9004123 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
9004075 GCAATGAACC
9004085 CTAAACCCTTATCT
1 CTAAACCCTTATCT
9004099 CTAAACCCTTATCT
1 CTAAACCCTTATCT
9004113 CTAAACCCTTA
1 CTAAACCCTTA
9004124 ACCCGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (14 bp):
CTAAACCCTTATCT
Found at i:9006329 original size:11 final size:11
Alignment explanation
Indices: 9006307--9006422 Score: 108
Period size: 11 Copynumber: 10.2 Consensus size: 11
9006297 AAACCCGCTA
9006307 AGCTCAAAATCG
1 AGCTC-AAATCG
9006319 AGCTCAAATCG
1 AGCTCAAATCG
**
9006330 AGCTTGAATCG
1 AGCTCAAATCG
**
9006341 AGCTTGAATCG
1 AGCTCAAATCG
9006352 AGCTCAAAATCG
1 AGCTC-AAATCG
**
9006364 AGCTTTAATCG
1 AGCTCAAATCG
**
9006375 AGCTTGAATCG
1 AGCTCAAATCG
9006386 AGCTCAAAATCG
1 AGCTC-AAATCG
9006398 AGCTCAAAATCG
1 AGCTC-AAATCG
9006410 AGCTTC-AATCG
1 AGC-TCAAATCG
9006421 AG
1 AG
9006423 TTCGAGTTTC
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
11 56 0.61
12 34 0.37
13 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (11 bp):
AGCTCAAATCG
Found at i:9006367 original size:34 final size:34
Alignment explanation
Indices: 9006314--9006422 Score: 166
Period size: 34 Copynumber: 3.2 Consensus size: 34
9006304 CTAAGCTCAA
*
9006314 AATCGAGCTC-AAATCGAGCTTGAATCGAGCTTG
1 AATCGAGCTCAAAATCGAGCTTAAATCGAGCTTG
*
9006347 AATCGAGCTCAAAATCGAGCTTTAATCGAGCTTG
1 AATCGAGCTCAAAATCGAGCTTAAATCGAGCTTG
* *
9006381 AATCGAGCTCAAAATCGAGCTCAAAATCGAGCTTC
1 AATCGAGCTCAAAATCGAGCT-TAAATCGAGCTTG
9006416 AATCGAG
1 AATCGAG
9006423 TTCGAGTTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 10 0.14
34 43 0.61
35 17 0.24
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (34 bp):
AATCGAGCTCAAAATCGAGCTTAAATCGAGCTTG
Found at i:9006374 original size:45 final size:46
Alignment explanation
Indices: 9006307--9006422 Score: 180
Period size: 45 Copynumber: 2.5 Consensus size: 46
9006297 AAACCCGCTA
* **
9006307 AGCTCAAAATCGAGCTCAAATCGAGCTTGAATCGAGCT-TGAATCG
1 AGCTCAAAATCGAGCTTAAATCGAGCTTGAATCGAGCTCAAAATCG
*
9006352 AGCTCAAAATCGAGCTTTAATCGAGCTTGAATCGAGCTCAAAATCG
1 AGCTCAAAATCGAGCTTAAATCGAGCTTGAATCGAGCTCAAAATCG
*
9006398 AGCTCAAAATCGAGCTTCAATCGAG
1 AGCTCAAAATCGAGCTTAAATCGAG
9006423 TTCGAGTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 36 0.55
46 29 0.45
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (46 bp):
AGCTCAAAATCGAGCTTAAATCGAGCTTGAATCGAGCTCAAAATCG
Found at i:9008110 original size:17 final size:17
Alignment explanation
Indices: 9008088--9008126 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9008078 TGAATCAAAT
9008088 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
9008105 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
9008122 -AATTA
1 TAATTA
9008127 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:9008479 original size:3 final size:3
Alignment explanation
Indices: 9008471--9008511 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
9008461 GACTATTGAA
* *
9008471 AAT AAT AAT AAT AGT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9008512 ACTTAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9009281 original size:71 final size:71
Alignment explanation
Indices: 9008957--9009334 Score: 255
Period size: 71 Copynumber: 5.3 Consensus size: 71
9008947 ATGCATTCGA
* * ** * * * **
9008957 CTTCCTCCATGGATGAGGGTTTTTCTACTAACGAGATAACTTCTATGATTGAGGCTCTAAGTTTT
1 CTTCCTCTATGGTTGAGGGTTCGTCTACTAACAAGGTATCTTCTATGATTGAGGCTC--AGGGTT
* *
9009022 GTGTTCAA
64 GTGTTTAG
* * * ** * * * * *
9009030 CTTTCTTCT-TGGCTGAGGATTCACCTACTAACGAGGTACCCTCCATGATTAAGGCTCTA-GGTT
1 C-TTCCTCTATGGTTGAGGGTTCGTCTACTAACAAGGTATCTTCTATGATTGAGGCTC-AGGGTT
**
9009093 GCATTT-G
64 GTGTTTAG
* * *
9009100 ACTTCCTCTATGGTTGAGGGTTCGTCTACTAATATGGTGTTCTTC-ATGATTGAGGCTCAGGGTT
1 -CTTCCTCTATGGTTGAGGGTTCGTCTACTAACAAGGT-ATCTTCTATGATTGAGGCTCAGGGTT
*
9009164 ATGTTTAG
64 GTGTTTAG
* * * *
9009172 CTTCCTCTATGATTAAGGGTTC-TCTTACTAACAGGGTATCTTCTATGATTGAGGCTTAGGGTTG
1 CTTCCTCTATGGTTGAGGGTTCGTC-TACTAACAAGGTATCTTCTATGATTGAGGCTCAGGGTTG
9009236 TGTTTAG
65 TGTTTAG
* * * * * *
9009243 CTTCCTCCATGGCTGAGGGTTCGTCTACTAGA-AAGGTATCCTCTATAACTGAGGCTCAAGGTTG
1 CTTCCTCTATGGTTGAGGGTTCGTCTACTA-ACAAGGTATCTTCTATGATTGAGGCTCAGGGTTG
* * *
9009307 TATTCAA
65 TGTTTAG
* * *
9009314 CTTTCTTTATGGTCGAGGGTT
1 CTTCCTCTATGGTTGAGGGTT
9009335 TGTTTAATAA
Statistics
Matches: 236, Mismatches: 59, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
70 14 0.06
71 170 0.72
72 8 0.03
73 39 0.17
74 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (71 bp):
CTTCCTCTATGGTTGAGGGTTCGTCTACTAACAAGGTATCTTCTATGATTGAGGCTCAGGGTTGT
GTTTAG
Found at i:9010052 original size:36 final size:36
Alignment explanation
Indices: 9009966--9010249 Score: 204
Period size: 36 Copynumber: 7.9 Consensus size: 36
9009956 AAATCATTTT
* * * *
9009966 CCTAGTCTTCCTTAAGATTGTTTCCTTAGAAACCAA
1 CCTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
* *
9010002 CTTTA-TCTTTCTTAAGACTGTTTCCCTAGAAACCAA
1 C-CTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
* * * * *
9010038 CCTAGTATTCCTTAAGACCATTTCCCTAAAAACTAA
1 CCTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
*
9010074 TCTAGTCTTTCTTAAGA-T-TTTCTTCCTAGAAACCAA
1 CCTAGTCTTTCTTAAGACTATTTC--CCTAGAAACCAA
** * * * *
9010110 TATAATCTTCCTTAAAACTATTTTCCTA-AAACCAA
1 CCTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
* * * *
9010145 CATAATCTTTCTTAAGAC-ATTTTCTCTAGAAATCAA
1 CCTAGTCTTTCTTAAGACTA-TTTCCCTAGAAACCAA
** * *
9010181 GTTAGTCTTTCTTAAAACCATTTCCCTAGAAACCAA
1 CCTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
* * *
9010217 CCTCA-TC-TCCTTAAGACTCATTGCTCTAGAAAC
1 CCT-AGTCTTTCTTAAGACT-ATTTCCCTAGAAAC
9010250 AAGTTTCTTA
Statistics
Matches: 196, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
34 5 0.03
35 38 0.19
36 145 0.74
37 5 0.03
38 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (36 bp):
CCTAGTCTTTCTTAAGACTATTTCCCTAGAAACCAA
Found at i:9012336 original size:54 final size:54
Alignment explanation
Indices: 9012254--9012698 Score: 633
Period size: 54 Copynumber: 8.2 Consensus size: 54
9012244 TTTATTAAGA
* * * * * **
9012254 TGCACACTTAATGCCTATACGGTAGTTCATCAACTCCTGATGAATTTCGTGGTT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
* *
9012308 TGCACACATAGTACCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
*
9012362 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
* * * *
9012416 TGCACATATATTGTCTGTACGGTTGTTCATCAACTCATGATGAA-TTCTATGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTC-GTGAAT
** *
9012470 TGCACACATAGTGCCACTACGGTTGTTCATCAACTCATGATGAATGTCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
* *
9012524 TGCACACATAGTGCCTGTACGGGTGTTCATCAACTCATGATGAATTCCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
** * * *
9012578 TTTACACATAGTGTCTGTACGATTATTCATCAACTCATGATGAATTTCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
*
9012632 TGCACACATAGTGCCTGTACGATTGTTCATCAACTCATGATGAATTTCGTGAACT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAA-T
9012687 T-CACACATAGTG
1 TGCACACATAGTG
9012699 TCTATAGTAC
Statistics
Matches: 350, Mismatches: 38, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
53 2 0.01
54 344 0.98
55 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGAAT
Found at i:9024004 original size:16 final size:14
Alignment explanation
Indices: 9023968--9023999 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9023958 AAGTTTTTAT
9023968 TTTGA-AAAAAAAA
1 TTTGATAAAAAAAA
9023981 TTTGATAAAAAAAA
1 TTTGATAAAAAAAA
9023995 TTTGA
1 TTTGA
9024000 CATAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (14 bp):
TTTGATAAAAAAAA
Found at i:9024288 original size:37 final size:37
Alignment explanation
Indices: 9024236--9024318 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
9024226 ATATTAAGAA
* * *
9024236 ATTAATATTTTTATAAATATTATAATAATAAAACTAAT
1 ATTAA-ATATTTATAAATATTATAATAATAAAAATAAC
*
9024274 ATTAAATATTTATAAATCTTATAATAATAAAAATAAC
1 ATTAAATATTTATAAATATTATAATAATAAAAATAAC
9024311 ATTAAATA
1 ATTAAATA
9024319 GCATTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (37 bp):
ATTAAATATTTATAAATATTATAATAATAAAAATAAC
Found at i:9026311 original size:22 final size:22
Alignment explanation
Indices: 9026286--9026330 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9026276 AAAAAAACAG
*
9026286 TCCCAAACAACTCCATAAACTT
1 TCCCAAACAACACCATAAACTT
*
9026308 TCCCAAACAACACCTTAAACTT
1 TCCCAAACAACACCATAAACTT
9026330 T
1 T
9026331 TTCACTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (22 bp):
TCCCAAACAACACCATAAACTT
Found at i:9026486 original size:14 final size:13
Alignment explanation
Indices: 9026461--9026487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9026451 AAATGGGATT
9026461 GATTAAATAAAAA
1 GATTAAATAAAAA
9026474 GATTAAATAAAAA
1 GATTAAATAAAAA
9026487 G
1 G
9026488 TTCACGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (13 bp):
GATTAAATAAAAA
Found at i:9026601 original size:20 final size:19
Alignment explanation
Indices: 9026564--9026601 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9026554 TTAACAGCCA
*
9026564 AAAAATAAAATCAACATTT
1 AAAAATAAAATAAACATTT
9026583 AAAAATAAAATAAATCATT
1 AAAAATAAAATAAA-CATT
9026602 CTCTCTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATAAAATAAACATTT
Found at i:9027086 original size:2 final size:2
Alignment explanation
Indices: 9027074--9027118 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
9027064 ATAGATTTTA
9027074 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9027115 AT AT
1 AT AT
9027119 TCTAAATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9027437 original size:2 final size:2
Alignment explanation
Indices: 9027430--9027456 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9027420 AAATCAACAT
9027430 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9027457 TCAAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9027496 original size:16 final size:16
Alignment explanation
Indices: 9027466--9027495 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9027456 TTCAAAGGTT
9027466 TATTATTTTTATTTTA
1 TATTATTTTTATTTTA
9027482 TATTA-TTTTATTTT
1 TATTATTTTTATTTT
9027496 TGTTGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTATTTTTATTTTA
Found at i:9027897 original size:20 final size:22
Alignment explanation
Indices: 9027859--9027898 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9027849 TTTTTGTAGA
9027859 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
9027881 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
9027899 AGATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:9029332 original size:64 final size:64
Alignment explanation
Indices: 9029256--9029378 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
9029246 GCACTATATA
* * * * *
9029256 ATGCATCGATGCACCCTTGAATAAATTGAA-TTTCGAATGCATTTTGTGTACCGATGCACAAGGC
1 ATGCATCAATGCACCCTTAAATAAATTGAACATT-GAATGCATTTTATGCACCGATGCACAAGGC
* * *
9029320 ATGCATCAATGCACTCTTAAATAATTTGAACATTGAATGCATTTTATGCATCGATGCAC
1 ATGCATCAATGCACCCTTAAATAAATTGAACATTGAATGCATTTTATGCACCGATGCAC
9029379 CCAGGCTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
64 48 0.96
65 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (64 bp):
ATGCATCAATGCACCCTTAAATAAATTGAACATTGAATGCATTTTATGCACCGATGCACAAGGC
Found at i:9030689 original size:664 final size:656
Alignment explanation
Indices: 9029373--9030694 Score: 2513
Period size: 664 Copynumber: 2.0 Consensus size: 656
9029363 TTATGCATCG
9029373 ATGCACCCAGGCTTATTTGAAATATCGAATGTATTTTATGCATCGATGAACCCCTAGTGTACCGA
1 ATGCACCCAGGCTTATTTGAAATATCGAATGTATTTTATGCATCGATGAACCCCTAGTGTACCGA
9029438 TGCACTAAGTCTTCCAACGGTCGAAATATTTGAATTTTACACATAGTGTAACCGATGCACATTGT
66 TGCACTAAGTCTTCCAACGGTCGAAATATTTGAATTTTACACATAGTGTAACCGATGCACATTGT
*
9029503 CTATGCATCGATGCACCATACGCTCCCAACTGTTTTATTAATTGTTTTCACACAATAACGGCTCT
131 CTATGCATCAATGCACCATACGCTCCCAACTGTTTTATTAATTGTTTTCACACAATAACGGCTCT
9029568 ATTGACTCCACTAATGATCCTCAACGTTCAAAAGTGATCCAAGGTGTATTTAAACAAGCTTAGGA
196 ATTGACTCCACTAATGATCCTCAACGTTCAAAAGTGATCCAAGGTGTATTTAAACAAGCTTAGGA
9029633 GCCATTTATCAATAACAATTATCAAGAATCAAGAGTGATCAAATCAAGTTTGAGCATTTCAGCCT
261 GCCATTTATCAATAACAATTATCAAGAATCAAGAGTGATCAAATCAAGTTTGAGCATTTCAGCCT
9029698 ATTTCATTCATATTCATTTTTGCTTTCAAAACACTTATTGTGCTCATGTATTATTCTTGAGTGTT
326 ATTTCATTCATATTCATTTTTGCTTTCAAAACACTTATTGTGCTCATGTATTATTCTTGAGTGTT
9029763 CTTTCTCTGTTCTAGAATTGTGCAACATCTTCCTTGTGAGGATTTTCTTGTAAGTTTGCAAAATT
391 CTTTCTCTGTTCTAGAATTGTGCAACATCTTCCTTGTGAGGATTTTCTTGTAAGTTTGCAAAATT
9029828 TGTATTGTTCTCTTTGGGAGAGAGTGTTTTCAAGAATTTGGGGTATAATTCTTGAGGGATTTGTA
456 TGTATTGTTCTCTTTGGGAGAGAGTGTTTTCAAGAATTTGGGGTATAATTCTTGAGGGATTTGTA
*
9029893 AGGTTACTTTTTGTCCTCAAAAGAAAGACAAATTAGTGAATTTGTGGAAATCCTTAGTTTGGATA
521 AGGTTACTTTTTATCCTCAAAAGAAAGACAAATTAGTGAATTTGTGGAAATCCTTAGTTTGGATA
9029958 GCTAAGGTAATAGACGTAGACTTTGGTTGAGAAAGTTTGAACCACTGTAAATCGTTGTGCAAATA
586 GCTAAGGTAATAGACGTAGACTTTGGTTGAGAAAGTTTGAACCACTGTAAATCGTTGTGCAAATA
9030023 TTTTCA
651 TTTTCA
*
9030029 ATGCACCCCGGCTTATTTGAAATATCGAATGTATTTTATGCATCGATGAACCCCTAGTGTACCGA
1 ATGCACCCAGGCTTATTTGAAATATCGAATGTATTTTATGCATCGATGAACCCCTAGTGTACCGA
9030094 TGCACTAAGTCTTCCAACGGTCGAAATATTTGAATTTTACACATAGTGT-ACCGATGCACATTGT
66 TGCACTAAGTCTTCCAACGGTCGAAATATTTGAATTTTACACATAGTGTAACCGATGCACATTGT
9030158 CTATGCATCAATGCACCATACGCTCCCAACTGTTTTATTAATTGTTTTCACACAATAACGGCTCT
131 CTATGCATCAATGCACCATACGCTCCCAACTGTTTTATTAATTGTTTTCACACAATAACGGCTCT
9030223 ATTGACTCCACTAATGATCCTCAACGTTCAAAAGTGATCCAAGGTGTATTTAAACAAGCTTAGGA
196 ATTGACTCCACTAATGATCCTCAACGTTCAAAAGTGATCCAAGGTGTATTTAAACAAGCTTAGGA
9030288 GCCATTTATCAATAACAATTATCAAGAATCAAGAGTGAATCAAATCAAGTTTGAGCATTTTCAAG
261 GCCATTTATCAATAACAATTATCAAGAATCAAGAGTG-ATCAAATCAAGTTTGAGCA-TTTC-AG
9030353 CCTATTTCATTCAATATTCATTTTTGCTTTCAAAAACACTTATTGTGCTCAATTGTATTATTCTT
323 CCTATTTCATTC-ATATTCATTTTTGCTTTC-AAAACACTTATTGTGCTC-A-TGTATTATTCTT
9030418 GAGTGTTCTTTCTCTGTTCTAGAATTGTGCAAACATCTTTCCTTGTGAGGATTTTCTTGTAAGTT
384 GAGTGTTCTTTCTCTGTTCTAGAATTGTGC-AACATC-TTCCTTGTGAGGATTTTCTTGTAAGTT
9030483 TGCAAAATTTGTATTGTTCTCTTTGGGAGAGAGTGTTTTCAAGAATTTGGGGTATAATTCTTGAG
447 TGCAAAATTTGTATTGTTCTCTTTGGGAGAGAGTGTTTTCAAGAATTTGGGGTATAATTCTTGAG
9030548 GGATTTGTAAGGTTACTTTTTATCCTCAAAAGAAAGACAAATTAGTGAATTTGTGGAAAATCCTT
512 GGATTTGTAAGGTTACTTTTTATCCTCAAAAGAAAGACAAATTAGTGAATTTGTGG-AAATCCTT
9030613 AGTTTGGATAGCTAAGGTAATAGACGTAGACTTTGGTTGAGAAAG-TTGAACCACTGTAAATCGT
576 AGTTTGGATAGCTAAGGTAATAGACGTAGACTTTGGTTGAGAAAGTTTGAACCACTGTAAATCGT
9030677 TGTGCAAATATTTTCA
641 TGTGCAAATATTTTCA
9030693 AT
1 AT
9030695 TTTCTGCAAA
Statistics
Matches: 653, Mismatches: 3, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
655 181 0.28
656 132 0.20
657 4 0.01
658 14 0.02
659 18 0.03
660 18 0.03
661 1 0.00
662 42 0.06
663 6 0.01
664 184 0.28
665 53 0.08
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (656 bp):
ATGCACCCAGGCTTATTTGAAATATCGAATGTATTTTATGCATCGATGAACCCCTAGTGTACCGA
TGCACTAAGTCTTCCAACGGTCGAAATATTTGAATTTTACACATAGTGTAACCGATGCACATTGT
CTATGCATCAATGCACCATACGCTCCCAACTGTTTTATTAATTGTTTTCACACAATAACGGCTCT
ATTGACTCCACTAATGATCCTCAACGTTCAAAAGTGATCCAAGGTGTATTTAAACAAGCTTAGGA
GCCATTTATCAATAACAATTATCAAGAATCAAGAGTGATCAAATCAAGTTTGAGCATTTCAGCCT
ATTTCATTCATATTCATTTTTGCTTTCAAAACACTTATTGTGCTCATGTATTATTCTTGAGTGTT
CTTTCTCTGTTCTAGAATTGTGCAACATCTTCCTTGTGAGGATTTTCTTGTAAGTTTGCAAAATT
TGTATTGTTCTCTTTGGGAGAGAGTGTTTTCAAGAATTTGGGGTATAATTCTTGAGGGATTTGTA
AGGTTACTTTTTATCCTCAAAAGAAAGACAAATTAGTGAATTTGTGGAAATCCTTAGTTTGGATA
GCTAAGGTAATAGACGTAGACTTTGGTTGAGAAAGTTTGAACCACTGTAAATCGTTGTGCAAATA
TTTTCA
Found at i:9032020 original size:21 final size:21
Alignment explanation
Indices: 9031996--9032046 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
9031986 AAGACTTTAT
*
9031996 TTTCAAAATATAAAACCGATA
1 TTTCAAAATATAAAAACGATA
9032017 TTTCAAAATATAAAAACGATA
1 TTTCAAAATATAAAAACGATA
*
9032038 TATCAAAAT
1 TTTCAAAAT
9032047 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (21 bp):
TTTCAAAATATAAAAACGATA
Found at i:9035830 original size:57 final size:57
Alignment explanation
Indices: 9035747--9035855 Score: 218
Period size: 57 Copynumber: 1.9 Consensus size: 57
9035737 ATTTAGCATT
9035747 TTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAGTGTATCGATTCTAGCA
1 TTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAGTGTATCGATTCTAGCA
9035804 TTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAGTGTATCGATTC
1 TTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAGTGTATCGATTC
9035856 ACTGAATAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (57 bp):
TTTGAGTGTTTAAAACGGATTTTTGACATTTTTGTGCTTAGTGTATCGATTCTAGCA
Found at i:9035834 original size:28 final size:28
Alignment explanation
Indices: 9035747--9035834 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
9035737 ATTTAGCATT
9035747 TTTGAGTGTTTAAAACGGATTTTTGACA
1 TTTGAGTGTTTAAAACGGATTTTTGACA
** ** * * *
9035775 TTTTTGTGCTTAGTGTATC-GATTCTAG-CA
1 TTTGAGTG-TT--TAAAACGGATTTTTGACA
9035804 TTTGAGTGTTTAAAACGGATTTTTGACA
1 TTTGAGTGTTTAAAACGGATTTTTGACA
9035832 TTT
1 TTT
9035835 TTGTGCTTAG
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
26 3 0.07
27 6 0.15
28 13 0.32
29 10 0.24
30 6 0.15
31 3 0.07
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (28 bp):
TTTGAGTGTTTAAAACGGATTTTTGACA
Found at i:9040626 original size:18 final size:18
Alignment explanation
Indices: 9040603--9040659 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 18
9040593 TATATTTTCC
9040603 AACAATTGATATCTTTTT
1 AACAATTGATATCTTTTT
9040621 AACAATTGATATCCTTTTGTT
1 AACAATTGATAT-C-TTT-TT
*
9040642 AACAATTGGTATCTTTTT
1 AACAATTGATATCTTTTT
9040660 CATTAAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 14 0.40
19 4 0.11
20 4 0.11
21 13 0.37
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (18 bp):
AACAATTGATATCTTTTT
Found at i:9040645 original size:21 final size:20
Alignment explanation
Indices: 9040603--9040659 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
9040593 TATATTTTCC
9040603 AACAATTGATAT-C-TTTTT
1 AACAATTGATATCCTTTTTT
9040621 AACAATTGATATCCTTTTGTT
1 AACAATTGATATCCTTTT-TT
*
9040642 AACAATTGGTAT-CTTTTT
1 AACAATTGATATCCTTTTT
9040660 CATTAAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 12 0.34
19 2 0.06
20 8 0.23
21 13 0.37
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (20 bp):
AACAATTGATATCCTTTTTT
Found at i:9041090 original size:22 final size:21
Alignment explanation
Indices: 9041065--9041105 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9041055 GAATTTAACA
*
9041065 AAGGTAGTACTGATACCCCTTG
1 AAGG-AGTACCGATACCCCTTG
*
9041087 AAGGGGTACCGATACCCCT
1 AAGGAGTACCGATACCCCT
9041106 GGTTATGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (21 bp):
AAGGAGTACCGATACCCCTTG
Found at i:9041455 original size:33 final size:34
Alignment explanation
Indices: 9041387--9041457 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
9041377 TTTTGTAAAG
9041387 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAAGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAAGCTA
* * * *
9041421 GGGAAAGGTTCTAGTTTATCCCTTG-AAAAGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAAGCTA
9041454 GGGA
1 GGGA
9041458 GTTTGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 12 0.36
34 21 0.64
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAAAGCTA
Found at i:9078440 original size:12 final size:12
Alignment explanation
Indices: 9078425--9078451 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9078415 CACTTTGTTC
9078425 CTCACTATCACT
1 CTCACTATCACT
9078437 CTCACTATCACT
1 CTCACTATCACT
9078449 CTC
1 CTC
9078452 TTCATCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCACTATCACT
Found at i:9078758 original size:12 final size:12
Alignment explanation
Indices: 9078703--9078766 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
9078693 GCAGTACAAC
*
9078703 CAGCAACACCCT
1 CAGCAGCACCCT
9078715 CAGCAGCACCCT
1 CAGCAGCACCCT
**
9078727 CAGTTGCACCCT
1 CAGCAGCACCCT
**
9078739 CATTAGCACCCT
1 CAGCAGCACCCT
* *
9078751 TAGCAGCACGCT
1 CAGCAGCACCCT
9078763 CAGC
1 CAGC
9078767 GGCAGTTATT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.25, C:0.44, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGCAGCACCCT
Found at i:9079594 original size:27 final size:27
Alignment explanation
Indices: 9079564--9079619 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9079554 GAGGGAGAGA
9079564 TTGAATGGGGAAAAGATTCAGAATTTG
1 TTGAATGGGGAAAAGATTCAGAATTTG
9079591 TTGAATGGGGAAAAGATTCAGAATTTG
1 TTGAATGGGGAAAAGATTCAGAATTTG
9079618 TT
1 TT
9079620 CTTGTAGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (27 bp):
TTGAATGGGGAAAAGATTCAGAATTTG
Found at i:9081247 original size:19 final size:20
Alignment explanation
Indices: 9081223--9081261 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
9081213 GAAGAAGAAT
9081223 TGACACAAGAG-AAAATAAG
1 TGACACAAGAGAAAAATAAG
9081242 TGACACAAGAGAAAAATAAG
1 TGACACAAGAGAAAAATAAG
9081262 AATTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.59, C:0.10, G:0.21, T:0.10
Consensus pattern (20 bp):
TGACACAAGAGAAAAATAAG
Found at i:9082518 original size:77 final size:77
Alignment explanation
Indices: 9082437--9082601 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
9082427 TACGGTTACA
* ** * *
9082437 CCCAATAATATCACGCCTCACTAAG-AAATAGGTTGTGATATGTAATGTTAATATTTTTATTAAT
1 CCCAA-AATATCACGCCTCACTAAGAAAACAGGTTGAAATATGGAATCTTAATATTTTTATTAAT
9082501 AAAATAGGTTGCG
65 AAAATAGGTTGCG
* * ** * *
9082514 CCCAAGAATGTCATGGTTCACTAAGAAAACATGTTGAAATCTGGAATCTTAATATTTTTATTAAT
1 CCCAA-AATATCACGCCTCACTAAGAAAACAGGTTGAAATATGGAATCTTAATATTTTTATTAAT
*
9082579 AAAATGGGTTGCG
65 AAAATAGGTTGCG
*
9082592 CCTAAAATAT
1 CCCAAAATAT
9082602 TATCAAAGTT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
77 24 0.33
78 48 0.67
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (77 bp):
CCCAAAATATCACGCCTCACTAAGAAAACAGGTTGAAATATGGAATCTTAATATTTTTATTAATA
AAATAGGTTGCG
Found at i:9083040 original size:74 final size:73
Alignment explanation
Indices: 9082895--9083104 Score: 215
Period size: 74 Copynumber: 2.8 Consensus size: 73
9082885 TTTAAATATC
* * * **
9082895 GATACTTTTAACTATTAAAAAGGTTGA-AGATAAGATCAAAATTTAAAATATCGATACTTATATG
1 GATACTTTTAAATATTAAAAAAGTTGATA-ATAAGATCGAAATTTAAAATATCGATACTTATGCG
*
9082959 GTAATGATA
65 ATAATGATA
* *
9082968 GATACTTTTAAAAATTAAAAAAAGTTGATAAAAAGATCGAAATTTAAAATATCGATACTTATGCG
1 GATACTTTTAAATATT-AAAAAAGTTGATAATAAGATCGAAATTTAAAATATCGATACTTATGCG
* *
9083033 ATGATGATC
65 ATAATGATA
* * * * * * * * *
9083042 GACACTTTTAGATATTGAACAAGTTGATGAATATGATTGATAGTTAAAATATCGATACATATG
1 GATACTTTTAAATATTAAAAAAGTTGAT-AATAAGATCGAAATTTAAAATATCGATACTTATG
9083105 TTATGAGGTT
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
73 24 0.21
74 88 0.78
75 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (73 bp):
GATACTTTTAAATATTAAAAAAGTTGATAATAAGATCGAAATTTAAAATATCGATACTTATGCGA
TAATGATA
Found at i:9083414 original size:102 final size:97
Alignment explanation
Indices: 9083306--9083680 Score: 401
Period size: 99 Copynumber: 3.9 Consensus size: 97
9083296 ACCTATTATA
* * * *
9083306 TTATCATGAAAAACCTGTTTTGTCTTACTTTTACAAAATATAAATGGTTTCATTCTTATAACTTA
1 TTATCATGAAAAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCATTCTTATAACTTA
*
9083371 AACGATTCACATTTAAAAAACGGTGCTACCCAGTGTG
66 AACGATTGACA-TTAAAAAA--GTGCTACCCA-T-TG
* *
9083408 TTATCATGAACAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTC-TTACTTATAATTT
1 TTATCATGAAAAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCATT-CTTATAACTT
*
9083472 AAACGGTTGACATTGAAAAAA--G-TA--C---G
65 AAACGATTGACATT-AAAAAAGTGCTACCCATTG
** * * *
9083498 TTATCATGAGCAACATGATTTGTCTTACTTTTGCATAATATAAACAGTTTCATTCTAATAACTTA
1 TTATCATGAAAAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCATTCTTATAACTTA
* *
9083563 AACGATTGACA-TAAAGAAAGCGCTACCTATTATG
66 AACGATTGACATTAAA-AAAGTGCTACCCA-T-TG
* * * * **
9083597 TTATCATGAGAAACATGTTTTGCCTTTCTTTTGCATCATATAAACGGTTTCAAACTTATAACTTA
1 TTATCATGAAAAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCATTCTTATAACTTA
9083662 AACGATTGACATTAAAAAA
66 AACGATTGACATTAAAAAA
9083681 AGGTGTTACC
Statistics
Matches: 234, Mismatches: 24, Indels: 33
0.80 0.08 0.11
Matches are distributed among these distances:
88 3 0.01
89 4 0.02
90 68 0.29
91 3 0.01
92 2 0.01
95 1 0.00
97 2 0.01
98 1 0.00
99 71 0.30
100 4 0.02
101 4 0.02
102 71 0.30
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (97 bp):
TTATCATGAAAAACATGTTTTGTCTTACTTTTGCATAATATAAACGGTTTCATTCTTATAACTTA
AACGATTGACATTAAAAAAGTGCTACCCATTG
Done.